tbuckley/cabot-search huggingface dataset:
The NCI-60 Human Tumor Cell Line Screen: A Catalyst for Progressive Evolution of Models for Discovery and Development of Cancer Drugs
Authors: Paul Workman
Journal: Cancer Research (2023)

Abstract Following three decades of systematic primary empirical screening against mice bearing two transplantable murine leukemias, the NCI took the bold step of switching to a radically different approach—initial screening of 10,000 diverse compounds/year against a panel of 60 human tumor cell lines in vitro. The establishment of the “NCI-60” screen was announced in the landmark Cancer Research article by Alley and colleagues, published in 1988, which exemplified the technological basis for the new microculture screen, operating at unprecedented scale. The underlying concept was that NCI-60 might expedite the discovery of innovative cancer drugs, especially those with predicted activity against particular solid cancers—not then possible. We discuss how NCI-60 provided a major technological advance and delivered a successful legacy for cancer research and development. While not immediately cracking the thorny problem of model-to-human tumor type prediction, NCI-60 nevertheless provided the conceptual and methodologic foundation for subsequent, much larger-scale human cancer cell panel screens with detailed molecular annotation and sophisticated informatics. Now used in modern molecular target–based drug discovery, these panels help enable the implementation of contemporary biomarker-led precision oncology. See related article by Alley and colleagues, Cancer Res 1988;48:589–601
Probiotics, Prebiotics, Lactoferrin, and Combination Products for Prevention of Mortality and Morbidity in Preterm Infants
Authors: Yuting Wang, Ivan D. Florez, Rebecca L. Morgan, Farid Foroutan, Yaping Chang, Holly N. Crandon, Dena Zeraatkar, Malgorzata M. Bala, Randi Q. Mao, Brendan Tao, Shaneela Shahid, Xiaoqin Wang, Joseph Beyene, Martin Offringa, Philip M. Sherman, Enas El Gouhary, Gordon H. Guyatt, Behnam Sadeghirad
Journal: JAMA Pediatrics (2023)

Modulation of intestinal microbiome by administering probiotics, prebiotics, or both may prevent morbidity and mortality in premature infants.
Reevaluating the Association Between Autism and Lithium Exposure During Pregnancy
Authors: Stella Barbanti Zancheta, Sergio Andre de Souza, Luisa Weber Bisol
Journal: JAMA Pediatrics (2023)

To the Editor The article by Liew et al1 provides important information about the association between maternal exposure to lithium in drinking water and risk for autism spectrum disorder (ASD) in offspring in Denmark. However, this article has drawbacks.
Chinese offers a test for universal cognitive processes
Authors: Ming Yan, Reinhold Kliegl
Journal: Behavioral and Brain Sciences (2023)

Abstract The Chinese writing system is unique in its implementation of graphemic, phonological, morphological, and semantic features. We add nuances to its portrait in the target article and highlight research on radically different timelines of phonological and semantic activation during reading of Chinese and alphabetic script, paving the way for the identification of universal and culture-specific cognitive processing.
The centrality of practice in ideographic communication, and the perennial puzzle of positivistic thinking
Authors: Lucas B. Mazur, Sandra Plontke
Journal: Behavioral and Brain Sciences (2023)

Abstract To the extent that we expect ideographs to be closer to the reality they depict than spoken or written words we are succumbing to the perennial allure of positivistic thinking. Morin powerfully argues that human communication, including ideography, cannot be understood apart from practice, thus removing the positivistic assumption that made the “puzzle of ideography” puzzling in the first place.
Evaluating the Application of Large Language Models in Clinical Research Contexts
Authors: Roy H. Perlis, Stephan D. Fihn
Journal: JAMA Network Open (2023)

Rachel S. Goodman, MBA; J. Randall Patrinely, MD, MBA; Cosby A. Stone Jr, MD, MPH; Eli Zimmerman, MD; Rebecca R. Donald, MD; Sam S. Chang, MD, MBA; Sean T. Berkowitz, MD, MBA; Avni P. Finn, MD, MBA; Eiman Jahangir, MD, MPH; Elizabeth A. Scoville, MD, MSCI; Tyler S. Reese, MD; Debra L. Friedman, MD, MS; Julie A. Bastarache, MD; Yuri F. van der Heijden, MD, MPH; Jordan J. Wright, MD, PhD; Fei Ye, PhD; Nicholas Carter, MD; Matthew R. Alexander, MD, PhD; Jennifer H. Choe, MD, PhD; Cody A. Chastain, MD; John A. Zic, MD, MMHC; Sara N. Horst, MD, MPH; Isik Turker, MD, MSc; Rajiv Agarwal, MD; Evan Osmundson, MD, PhD; Kamran Idrees, MD, MSCI, MMHC; Colleen M. Kiernan, MD, MPH; Chandrasekhar Padmanabhan, MD; Christina E. Bailey, MD, MSCI; Cameron E. Schlegel, MD; Lola B. Chambless, MD; Michael K. Gibson, MD, PhD; Travis J. Osterman, DO, MS; Lee E. Wheless, MD, PhD; Douglas B. Johnson, MD, MSCI
Bypass language <i>en route</i> to meaning at your peril
Authors: Lindsay N. Harris, Charles A. Perfetti, Elizabeth A. Hirshorn
Journal: Behavioral and Brain Sciences (2023)

Abstract The learning account of the puzzle of ideography cannot be dismissed as readily as Morin maintains, and is compatible with the standardization account. The reading difficulties of deaf and dyslexic individuals, who cannot easily form connections between written letter strings and spoken words, suggest limits to our ability to bypass speech and reliably access meaning directly from graphic symbols.
Floods and Diarrhea Risk in Young Children in Low- and Middle-Income Countries
Authors: Pin Wang, Ernest O. Asare, Virginia E. Pitzer, Robert Dubrow, Kai Chen
Journal: JAMA Pediatrics (2023)

Climate change is associated with more frequent and intense floods. Current research on the association between flood exposure and diarrhea risk is limited mainly to short-term and event-specific analyses. Moreover, how prior drought or water, sanitation, and hygiene (WaSH) practices influence this association remains largely unknown.
Disparities in Kidney Transplant Waitlisting Among Young Patients Without Medical Comorbidities
Authors: S. Ali Husain, Miko E. Yu, Kristen L. King, Joel T. Adler, Jesse D. Schold, Sumit Mohan
Journal: JAMA Internal Medicine (2023)

Disparities in kidney transplant referral and waitlisting contribute to disparities in kidney disease outcomes. Whether these differences are rooted in population differences in comorbidity burden is unclear.
Can We De-escalate Therapy for HER2-Positive Metastatic Breast Cancer?
Authors: Laura A. Huppert, Hope S. Rugo
Journal: Clinical Cancer Research (2023)

Summary A recent phase Ib/II trial evaluated the combination of tucatinib, letrozole, and palbociclib in patients with HR+/HER2+ metastatic breast cancer, demonstrating a manageable safety profile and encouraging efficacy data. An all-oral, chemotherapy-free regimen is an appealing strategy, and could be a possible maintenance or primary therapy option in select patients. See related article by Shagisultanova et al., p. 5021
Infants Eligible for Neonatal Hypoglycemia Screening
Authors: Michelle O’Brien, Catherine Gilchrist, Lynn Sadler, Joanne E. Hegarty, Jane M. Alsweiler
Journal: JAMA Pediatrics (2023)

Neonatal hypoglycemia is common, occurring in up to 50% of infants at risk for hypoglycemia (infant of diabetic mother [IDM], small for gestational age [SGA], large for gestational age [LGA], and preterm) and is associated with long-term neurodevelopmental impairment. Guidelines recommend screening infants at risk of hypoglycemia. The proportion of infants who require screening for neonatal hypoglycemia is unknown.
The design space of human communication and the nonevolution of ideography
Authors: Walter Veit, Heather Browning
Journal: Behavioral and Brain Sciences (2023)

Abstract Despite the once-common idea that a universal ideography would have numerous advantages, attempts to develop such ideographies have failed. Here, we make use of the biological idea of fitness landscapes to help us understand the nonevolution of such a universal ideographic code as well as how we might reach this potential global fitness peak in the design space.
Persistence of Autism Spectrum Disorder From Early Childhood Through School Age
Authors: Elizabeth Harstad, Ellen Hanson, Stephanie J. Brewster, Rafael DePillis, Anna L. Milliken, Gabriella Aberbach, Georgios Sideridis, William J. Barbaresi
Journal: JAMA Pediatrics (2023)

While the prevalence of autism spectrum disorder (ASD) continues to increase and early diagnosis is emphasized, there is limited information on outcomes for children diagnosed with ASD in early childhood using contemporary diagnostic criteria.
On the semiotic and material constraints of ideographies
Authors: Izzy Wisher, Kristian Tylén
Journal: Behavioral and Brain Sciences (2023)

Abstract Despite obvious advantages, no generalised ideographic codes have evolved through cultural evolution to rely on iconicity. Morin suggests that this is because of missing means of standardisation, which glottographic codes get from natural languages. Although we agree, we also point to the important role of the available media, which might support some forms of reference more effectively than others.
Loneliness and Risk of Parkinson Disease
Authors: Antonio Terracciano, Martina Luchetti, Selin Karakose, Yannick Stephan, Angelina R. Sutin
Journal: JAMA Neurology (2023)

Loneliness is associated with morbidity and mortality, including higher risk of neurodegenerative diseases. To our knowledge, no study has examined whether the association between loneliness and detrimental outcomes extends to Parkinson disease (PD).
Pragmatic interpretation and the production of ideographic codes
Authors: Leda Berio, Berke Can, Katharina Helming, Giulia Palazzolo, Richard Moore
Journal: Behavioral and Brain Sciences (2023)

We argue that the problem of ideographic codes stems from neither learnability nor standardization, but from a general issue of pragmatic interpretation. As ideographic codes increase in expressive power, in order to reduce ambiguity, they must become more detailed - such that production becomes more cumbersome, and requires greater artistry on the part of users, limiting their capacity for growth.
A cognitive account of the puzzle of ideography
Authors: Xerxes D. Arsiwalla
Journal: Behavioral and Brain Sciences (2023)

Abstract We posit a cognitive account of the puzzle of ideography, which complements the standardization account of Morin. Efficient standardization of spoken language is phenomenologically attributed to a modality effect coupled with chunking of cognitive representations, further aided by multisensory integration and the serialized nature of attention. These mechanisms explain why languages dominate graphic codes for general-purpose communication.
Visual languages and the problems with ideographies: A commentary on Morin
Authors: Neil Cohn, Joost Schilperoord
Journal: Behavioral and Brain Sciences (2023)

Morin argues that ideographies are limited because graphic codes lack a capacity for proliferating standardization. However, natural graphic systems display rich standardization and can be placed in sequences using complex combinatorial structures. In contrast, ideographies are not natural, and their limitations lie in their attempts to artificially force a graphic system to behave like a writing system.
A Landmark Paper That Introduced Proteasome Inhibition in Myeloma
Authors: Anup Joseph Devasia, Guido Lancman, A. Keith Stewart
Journal: Cancer Research (2023)

The ongoing therapeutic revolution in multiple myeloma care can be traced to the turn of the millennium with the unanticipated discovery in 1999 that the cereblon binding small molecule thalidomide had profound clinical effectiveness and, simultaneously, the emergence of a new class of targeted therapies inhibiting the proteasome, both of which ultimately target ubiquitinated protein degradation. These contemporaneous discoveries forever changed the landscape of multiple myeloma care, substantially extending survival. Foreshadowing this seismic change, Nobel Prize winning work on the proteasome ubiquitin pathway had stimulated the development of highly specific proteasome inhibitor small molecules, particularly PS-341 (later named bortezomib). An abundance of the proteasome in hematologic malignancies had been recognized and thus PS-341 was logically being explored in relevant preclinical models. Concurrent with phase I trials, which were soon to prove the significant clinical relevance of preclinical models, the laboratory of Dr. Kenneth Anderson and colleagues at Dana-Farber, in partnership with Dr. Julian Adams and scientists at ProScript (later Millennium Pharmaceuticals) first demonstrated that the proteasome inhibitor PS-341 inhibited growth, induced apoptosis, and overcame drug resistance in human multiple myeloma cells. This landmark paper in Cancer Research set the stage for a paradigm shift in how multiple myeloma was managed across all stages of the disease, which changed the lives of patients worldwide. See related article by Hideshima and colleagues, Cancer Res 2001;61:3071-6.
BRCC3-Mediated NLRP3 Deubiquitylation Promotes Inflammasome Activation and Atherosclerosis in <i>Tet2</i> Clonal Hematopoiesis
Authors: Mustafa Yalcinkaya, Wenli Liu, Leigh-Anne Thomas, Malgorzata Olszewska, Tong Xiao, Sandra Abramowicz, Eirini P. Papapetrou, Marit Westerterp, Nan Wang, Ira Tabas, Alan R. Tall
Journal: Circulation (2023)

Clonal hematopoiesis (CH) has emerged as an independent risk factor for atherosclerotic cardiovascular disease, with activation of macrophage inflammasomes as a potential underlying mechanism. The NLRP3 (NLR family pyrin domain containing 3) inflammasome has a key role in promoting atherosclerosis in mouse models of
The stranding of the ideography: A nonnegligible role of the spoken language
Authors: Bohua Zhang, Xueping Hu, Qing Li, Antao Chen
Journal: Behavioral and Brain Sciences (2023)

Abstract Morin suggested that one of the reasons for the difficulty in standardizing graphic codes is that the production of spoken language reduces the need for graphic codes. Here we try to extend their claims from a psychological perspective, which allows us to conclude that the puzzle of ideography is perhaps related to human psychological traits and psychological evolution.
Feasibility of Emulating Clinical Trials Supporting US FDA Supplemental Indication Approvals of Drugs and Biologics
Authors: Guneet S. Janda, Joshua D. Wallach, Meera M. Dhodapkar, Reshma Ramachandran, Joseph S. Ross
Journal: JAMA Internal Medicine (2023)

This cross-sectional study evaluates the supporting clinical trials for supplemental new drug applications and supplemental biologics license applications from 2017 to 2019.
Association Between Mental Health Burden, Clinical Presentation, and Outcomes in Individuals With Symptomatic Peripheral Artery Disease: A Scientific Statement From the American Heart Association
Authors: Kim G. Smolderen, Zainab Samaan, Carole Decker, Tracie Collins, Ronald M. Lazar, Nathan K. Itoga, Carlos Mena-Hurtado
Journal: Circulation (2023)

Along with the rising burden of peripheral artery disease (PAD), mental health concerns are increasingly being recognized as a comorbidity to address in the chronic disease management of symptomatic PAD. Apart from a high prevalence of comorbid mental health conditions, the role of pain and changing health behaviors and the broader impacts of illness and adaptation to living with PAD require specialized behavioral health expertise. This scientific statement builds a case that this expertise should be integrated within the multidisciplinary PAD team. Furthermore, areas such as cognitive dysfunction and palliative care are highlighted as needing psychological interventions. Although much of the evidence of the efficacy of psychological and psychotropic interventions has been extrapolated from other cardiovascular populations, evidence for the role of psychological interventions for behavior change, for example, uptake of exercise regimens, is increasingly being accrued within PAD. Areas for behavioral health needs and interactions with PAD treatment are discussed, including the use of opioids, depression management, anxiety and stress reduction interventions, the use of benzodiazepines and antidepressants, smoking cessation, rehabilitation trajectories after amputation, and the role of cognitive decline for PAD treatment and outcomes. A case summary highlights the stigma around mental health and vascular disease and the fragmentation of care. This scientific statement provides remarks for building a road map for integrated behavioral PAD care and potential solutions to overcome these barriers. Instrumental to reaching these changes are interprofessional advocacy efforts and initiatives that help break down the stigma around mental health and promote evidence-based collaborative, nonhierarchical, and multidisciplinary PAD care.
The feasibility of ideography as an empirical question for a science representational systems design
Authors: Peter C-H Cheng
Journal: Behavioral and Brain Sciences (2023)

Abstract The possibility of ideography is an empirical question. Prior examples of graphic codes do not provide compelling evidence for the infeasibility of ideography, because they fail to satisfy essential cognitive requirements that have only recently been revealed by studies of representational systems in cognitive science. Design criteria derived from cognitive principles suggest how effective graphic codes may be engineered.
The disadvantage of ideography
Authors: Ignasi-Xavier Adiego, Miguel Valério
Journal: Behavioral and Brain Sciences (2023)

Abstract Morin argues that fully fledged ideography is hindered by a problem of standardization. In general, the argument makes a great deal of sense, but we find that it is easier to grasp if, unlike the author, we consider ideography a language – one whose symbols (graphs) are not as effortless to produce as those of spoken and sign languages (phones, gestures).
JAMA Pediatrics
Journal: JAMA Pediatrics (2023)

Vision JAMA Pediatrics will be the most respected source of information for investigators, providers, and policy makers seeking the highest quality evidence to guide decision-making.Mission Statement JAMA Pediatrics seeks to provide state-of-the-art information to individuals and organizations working to advance the health and well-being of infants, children, and adolescents.The journal also provides a forum for discussion of the most important issues and policies aff ecting child and adolescent health and health care.
Error in Figure 1
Journal: JAMA Neurology (2023)

Andreas Schulze-Bonhage, MD; Martin Hirsch, MD; Susanne Knake, MD; Elisabeth Kaufmann, MD; Josua Kegele, MD; Michael Rademacher, MD; Kristl Vonck, MD, PhD; Volker Arnd Coenen, MD; Martin Glaser, MD; Carolin Jenkner, PhD; Yaroslav Winter, MD; Sergiu Groppa, MD, PhD; EASEE Study Group; Valerie Borger; Frank Dewaele; Mathias Kunz; Georgios Naros; Christopher Nimsky
Functional ideographies are composite semiotic systems
Authors: Stephen Chrisomalis
Journal: Behavioral and Brain Sciences (2023)

Abstract All sufficiently large functional notations (ideographic or otherwise) are composites of discrete, structured elements (e.g., phonemes, morphemes, numerals). We must consider not only the modality but also the structure of the existing, workable ideographic/semasiographic systems we know (e.g., musical and numerical notation) to establish the cognitive limitations militating against humans memorizing and standardizing domain-general ideographies that would parallel written language.
Ideography insight from facial recognition and neuroimaging
Authors: Benjamin C. Nephew, Justin J. Polcari, Dmitry Korkin
Journal: Behavioral and Brain Sciences (2023)

Abstract One novel example and/or perspective in support of “Why the learning account fails” is the impressive ability of humans to recognize and memorize facial features and accurately and reliably connect those to related identities. Furthermore, neuroimaging analysis presents an example in support of the crucial role of standardization in the lack of adoption of ideography.
Puzzling out graphic codes
Authors: Olivier Morin
Journal: Behavioral and Brain Sciences (2023)

Abstract This response takes advantage of the diverse and wide-ranging series of commentaries to clarify some aspects of the target article, and flesh out other aspects. My central point is a plea to take graphic codes seriously as codes, rather than as a kind of visual art or as a byproduct of spoken language; only in this way can the puzzle of ideography be identified and solved. In this perspective, I argue that graphic codes do not derive their expressive power from iconicity alone (unlike visual arts), and I clarify the peculiar relationship that ties writing to spoken language. I then discuss three possible solutions to the puzzle of ideography. I argue that a learning account still cannot explain why ideographies fail to evolve, even if we emancipate the learning account from the version that Liberman put forward; I develop my preferred solution, the “standardization account,” and contrast it with a third solution suggested by some commentaries, which says that ideographies do not evolve because they would make communication too costly. I consider, by way of conclusion, the consequences of these views for the future evolution of ideography.
Adipose‐Derived Stromal Cells Preserve Pancreatic Islet Function in a Transplantable 3D Bioprinted Scaffold
Authors: Shadab Abadpour, Essi M. Niemi, Linnea Strid Orrhult, Carolin Hermanns, Rick de Vries, Liebert Parreiras Nogueira, Håvard Jostein Haugen, Dag Josefsen, Stefan Krauss, Paul Gatenholm, Aart van Apeldoorn, Hanne Scholz
Journal: Advanced Healthcare Materials (2023)

Intra-portal islet transplantation is currently the only clinically approved beta cell replacement therapy, but its outcome is hindered by limited cell survival due to a multifactorial reaction against the allogeneic tissue in liver. Adipose-derived stromal cells (ASCs) can potentially improve the islet micro-environment by their immunomodulatory action. The challenge is to combine both islets and ASCs in a relatively easy and consistent long-term manner in a deliverable scaffold. Manufacturing the 3D bioprinted double-layered scaffolds with primary islets and ASCs using a mix of alginate/nanofibrillated cellulose (NFC) bioink is reported. The diffusion properties of the bioink and the supportive effect of human ASCs on islet viability, glucose sensing, insulin secretion, and reducing the secretion of pro-inflammatory cytokines are demonstrated. Diabetic mice transplanted with islet-ASC scaffolds reach normoglycemia seven days post-transplantation with no significant difference between this group and the group received islets under the kidney capsules. In addition, animals transplanted with islet-ASC scaffolds stay normoglycemic and show elevated levels of C-peptide compared to mice transplanted with islet-only scaffolds. The data present a functional 3D bioprinted scaffold for islets and ASCs transplanted to the extrahepatic site and suggest a possible role of ASCs on improving the islet micro-environment.